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[pre-commit.ci] pre-commit autoupdate #105

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a86e7b3
[pre-commit.ci] pre-commit autoupdate
pre-commit-ci[bot] Sep 21, 2026
000da38
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Sep 21, 2026
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4 changes: 2 additions & 2 deletions .pre-commit-config.yaml
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Original file line number Diff line number Diff line change
Expand Up @@ -33,7 +33,7 @@ repos:

- repo: https://github.com/astral-sh/ruff-pre-commit
# Ruff version.
rev: v0.16.2
rev: v0.16.8
hooks:
# Run the linter.
- id: ruff-check
Expand All @@ -55,7 +55,7 @@ repos:
# - id: codespell

- repo: https://github.com/PyCQA/bandit
rev: 1.7.9
rev: 1.9.4
hooks:
- id: bandit
args: ["-c", "pyproject.toml"]
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10 changes: 7 additions & 3 deletions README.md
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Expand Up @@ -71,7 +71,9 @@ To create a `SummarizedExperiment`,
from summarizedexperiment import SummarizedExperiment

tse = SummarizedExperiment(
assays={"counts": counts}, row_data=row_data, column_data=col_data,
assays={"counts": counts},
row_data=row_data,
column_data=col_data,
metadata={"seq_platform": "Illumina NovaSeq 6000"},
)
```
Expand All @@ -93,8 +95,10 @@ from summarizedexperiment import RangedSummarizedExperiment
from genomicranges import GenomicRanges

trse = RangedSummarizedExperiment(
assays={"counts": counts}, row_data=row_data,
row_ranges=GenomicRanges.from_pandas(row_data.to_pandas()), column_data=col_data
assays={"counts": counts},
row_data=row_data,
row_ranges=GenomicRanges.from_pandas(row_data.to_pandas()),
column_data=col_data,
)
```

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